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9 protocols using bubr1

1

Antibody Validation for Western Blotting

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The following antibodies were used at the indicated dilutions: c‐Myc (9E10, sc‐40, 1:1,000, Santa Cruz Biotechnology), Separase (A302‐215A, 1:2,000, Bethyl Laboratories), KIF4A (A301‐074A, 1:1,000, Bethyl Laboratories), Axin1 (#2087, 1:1,000, Cell Signaling Technology), B56α (610615, 1:3,000, BD Biosciences), BubR1 (A300‐995A,1:1,000, Bethyl Laboratories), PP2A catalytic subunit (05‐421, 1:2,000, Millipore), PP2A scaffold subunit (#2041, 1:1,000, Cell Signaling Technology) GFP (ab290, 1:4,000, Abcam), FoxO3 pS413 (#8174, 1:1,000, Cell Signaling Technology), FoxO3 rabbit polyclonal α‐pS253 (Raised against peptide CAPRRRAV(pS)MDNS; 1:500, Moravian Biotechnology), Anti‐RFP (1:1,000; MBL, FM005), Anti‐GFP (1:1,000; Roche, 11814460001), Rabbit anti‐ADAM17 (1:1,000, Abcam, 2051), Rabbit anti‐ADAM17 (1:1,000, Abcam, 39162), Rabbit anti‐EGFR (1:1,000, cell signaling, 2232), Rabbit anti‐pEGFR Y1068 (1:1,000, cell signaling, 2234), Mouse anti‐Transferrin receptor (1:1,000, Invitrogen, 136800), Mouse anti‐GAPDH (1:5,000, Sigma, G8795), rabbit Anti‐GFP (1:3,000, Takara Bio Clontech, 632592), Donkey anti‐rabbit‐HRP (1:2,000, GE Healthcare, NA934), Sheep anti‐mouse‐HRP (1:2,000, GE Healthcare, NXA931), and H3pS10 (06‐570, 1:1,000, Millipore).
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2

Immunoblotting of cell cycle regulators

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Immunoblotting was performed as previously described (Di and Pines, 2010). Primary antibodies were used at the indicated concentration: FLAG (M2, Sigma, 3μg/ml), Mad2 (Bethyl Laboratories, 1μg/ml), actin (AC-15, Sigma, 1:1000), CDC20 (Bethyl Laboratories, 0.5 μg/ml), anti-APC4 (mAb, 1:500), BubR1 (Bethyl Laboratories, 0.5 μg/ml), Bub3 (Bethyl Laboratories, 0.5 μg/ml), Bub1 (Abcam, 1:3000). IRDye680 and IRDye800CW (LI-COR)-conjugated secondary antibodies were used at 1:10000. The signal was detected using an Odyssey scanner (LI-COR) as previously described (Nilsson et al., 2008 (link)).
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3

Comprehensive Mitotic Spindle Protein Analysis

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The following antibodies were commercially purchased and used at the indicated dilutions for immunofluorescence (IF) and immunoblotting (IB); Actin (I-19, Santa Cruz Biotechnology, IB; 1/2000), α-tubulin (B-5-1-2, Sigma, IF; 1/1000), BubR1 (Bethyl Laboratories, IF; 1/500), CENP-E (Sigma, IF; 1/500, IB; 1/2000), CENP-F (Abcam, IF; 1/1000), CLIP170 (Santa Cruz Biotechnology, IF; 1/500), dynein intermediate chain (DIC, Sigma, IF; 1/500), Hec1 (9G3, Abcam, IF; 1/1000, IB; 1/2000), Kid (Cytoskeleton Inc., IB: 1/1000), KNL1 (Novus Biologicals, IF; 1/500), Mad2 (Novus Biologicals, IF; 1/500), Nde1 (Protein Tech Group, IF; 1/500), Ska1 (Abcam, IF; 1/500), Spindly (Bethyl Laboratories, IF; 1/500, IB; 1/2000), Zwint-1 (Bethyl Laboratories, IF; 1/500), Zw10 (Cosmo Bio, IF; 1/200, IB; 1/2000), pericentrin (Abcam, IF; 1/500).
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4

Mitotic Arrest and Protein Complex Purification

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HeLa-FlpIn-TRex cells were induced with doxycyclin (2 µg ml−1) 48 h before harvesting. Synchronization by thymidine (2 mM) for 24 h and release for 10 h into Taxol (2 µM) arrested cells in prometaphase. Cells were collected by mitotic shake-off. Lysis was done in 50 mM Tris-HCl (pH 7.5), 100 mM NaCl, 0.5% NP40, 1 mM EDTA, 1 mM DTT, protease inhibitor cocktail (Roche) and phosphatase inhibitor cocktails 2 and 3 (Sigma). Complexes were purified using GFP-Trap beads (ChromoTek) for 15 min at 4°C. Precipitated proteins were washed with lysis buffer and eluted in 5× SDS sample buffer. Primary antibodies were used at the following dilutions for western blotting: BUBR1 (A300-386A, Bethyl) 1 : 2000, alpha-tubulin (T9026, Sigma) 1 : 5000, GFP (Custom) 1 : 10 000, APC1 (A301-653A, Bethyl) 1 : 2500, APC3 (gift from Phil Hieter) 1 : 2000, MAD2 (Custom) 1 : 2000, CDC20 (A301-180A, Bethyl) 1 : 1000. Western blot signals were detected by chemiluminescence using an ImageQuant LAS 4000 (GE Healthcare) imager.
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5

Regulation of Cell Cycle Progression by CDK4/6 Inhibitors

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Chemicals utilized included palbociclib (Selleck Chemicals, S1116), abemaciclib (ApexBio, A1794), and fulvestrant (Sigma-Aldrich, I4409). Primary antibodies utilized included antibodies against β-Actin (Santa Cruz, sc-47778), Rb (Cell Signaling Technology, clone 4H1, 9309, 9307), pRb S780 (CST, 3590), pRb S807/811 (CST, 8516), Akt (CST, 9272), Ras (CST, clone D2C1, 8955), Aurora A (CST, clone D3E4Q, 14475; R&D systems AF3295), Cyclin E2 (CST, 4132), ERK total (CST, 3042), pERK T202/Y204 (CST, 4370, 4376), BUBR1 (Bethyl Labs, A300-386A), MAD2 (BD Transduction Laboratories, 610679), in addition to the secondary antibodies goat anti-rabbit (Invitrogen, 32260) and goat anti-mouse (Invitrogen, A16090).
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6

Immunoblotting Antibody Optimization Protocol

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Immunoblotting was performed as previously described [42 (link)], except that a ChemiDoc Touch imaging system (Bio-Rad, Hercules, CA, USA) was used to detect the signals. The following antibodies were obtained from the indicated sources and used at the indicated concentrations: monoclonal antibodies against beta-actin (Sigma-Aldrich; 0.2 µg/ml), FLAG (Sigma-Aldrich; 1 µg/ml), BUB3 (BD Biosciences, Franklin Lakes, NJ, USA; 0.25 µg/ml), CDC27 (BD Biosciences; 0.125 µg/ml), cleaved PARP1(Asp214) (BD Biosciences; 0.2 µg/ml), CDH1 (Thermo Scientific; 1 µg/ml), CDC20 (Santa Cruz Biotechnology, Santa Cruz, CA, USA; 0.2 µg/ml), MAD1 (Santa Cruz Biotechnology; 0.2 µg/ml),TRIP13 (Santa Cruz Biotechnology; 0.2 µg/ml), APC4 (Abcam, Cambridge, UK; 0.1 µg/ml), polyclonal antibodies against phosphor-histone H3Ser10 (Santa Cruz Biotechnology; 0.1 µg/ml), BUBR1 (Bethyl Laboratories, Montgomery, TX, USA; 0.2 µg/ml), MAD2 [43 (link)], and p31comet [44 (link)]. Antibodies against cyclin B1 (1 µg/ml) were gifts from Julian Gannon (Cancer Research UK). Immunoprecipitation of MAD2 or CDC20 was performed as previously described [43 (link)]. Antibody against APC4 for immunoprecipitation was prepared by immunizing rabbits with an APC4 peptide (CIVIKVEKLDPELDS) (GenScript, Piscataway, NJ, USA).
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7

Immunoblotting and Immunofluorescence Assays

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The following primary antibodies against respective antigens were used: LIC1, Mad1, Mad2, Zw10 (Pierce/ Thermo-scientific); LIC2 (Pierce/ Thermo-Scientific PA5-25392 for immunoblotting and immunofluorescence staining, Abcam ab178702 for immunoblotting), BubR1 (Bethyl laboratories); dynein heavy chain from Abcam and ProteinTech; α-tubulin (Dm1α), β–actin, monoclonal antibodies from Sigma; IC-74 monoclonal antibody from Abcam. The CREST antibody was purchased from Antibodies Incorporated. HRP conjugated anti-mouse and anti-rabbit secondary antibodies were purchased from Sigma for Western blotting. The fluorophore attached secondary antibodies for immunofluorescence analyses were purchased from Jackson Immunoresearch.
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8

Investigating Spindle Checkpoint Proteins

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Cellular proteins were extracted followed by immunoprecipitation overnight at 4 °C with mouse anti-cdc20 monoclonal antibody (Epitomics, Burlingame, CA, USA) and A/G-agarose beads. The precipitated beads were washed with ice-cold cell lysis buffer. The immune complex was subjected to SDS-PAGE gel electrophoresis followed by immunoblotting assay using rabbit anti-BubR1, Mad2 (Bethyl Laboratories, Inc., Montgomery, TX, USA), and cdc23 antibodies (Epitomics).
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9

Characterization of Mitotic Spindle Proteins

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Standard lab reagents and stocks were purchased from Sigma Aldrich, Thermo Rabbit antibodies against PLK1, PRC1 and PRC1-pT602 were described previously (Neef et al., 2007; Neef et al., 2006) . The MAD2 antibody was raised in sheep (Scottish Blood Transfusion Service) using full length human 6His-MAD2 expressed in bacteria and coupled to KLH as the antigen. The serum was affinitypurified using GST-tagged MAD2. The commercial antibodies used were Aurora A (Cell Signalling; 4718S), Aurora B (BD Transduction labs; 611083), BUBR1 (Bethyl; A300-386A), CDC20 (Proteintech; 10252-1), CDH1 (Santa Cruz; sc-56312), Cyclin B1 (Millipore; 05-373), PPP1CA (Bethyl; A300-904A), PPP1CA-pT320 (AbCam, ab62334), PRC1-pT481 (AbCam; EP1514Y/ab62366), securin (AbCam; ab79546), TPX2 (AbCam; ab32795), tubulin (Sigma; T6199). For Western blotting, proteins were separated by SDS-PAGE and transferred to nitrocellulose using a Trans-blot Turbo system (Bio-Rad Laboratories). Species-specific secondary antibodies conjugated to horseradish peroxidase (HRP) were obtained from Jackson ImmunoResearch Laboratories, Inc. and used at 1 µg/ml. All Western blots were revealed using ECL (GE Healthcare) on films.
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